Atomistry » Manganese » PDB 1pj4-1r1o » 1q8v
Atomistry »
  Manganese »
    PDB 1pj4-1r1o »
      1q8v »

Manganese in PDB 1q8v: Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man

Protein crystallography data

The structure of Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man, PDB code: 1q8v was solved by R.Loris, I.Van Walle, H.De Greve, S.Beeckmans, F.Deboeck, L.Wyns, J.Bouckaert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 17.90 / 1.85
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.850, 83.610, 122.960, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 20.5

Other elements in 1q8v:

The structure of Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man also contains other interesting chemical elements:

Calcium (Ca) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man (pdb code 1q8v). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man, PDB code: 1q8v:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 1q8v

Go back to Manganese Binding Sites List in 1q8v
Manganese binding site 1 out of 2 in the Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn261

b:16.8
occ:1.00
OE1 A:GLU128 2.2 15.3 1.0
O A:HOH266 2.2 16.3 1.0
OD1 A:ASP130 2.2 15.2 1.0
OD1 A:ASP141 2.2 14.2 1.0
NE2 A:HIS146 2.3 15.4 1.0
O A:HOH265 2.3 13.7 1.0
CG A:ASP141 3.2 18.9 1.0
CD A:GLU128 3.2 20.1 1.0
CE1 A:HIS146 3.2 18.8 1.0
CG A:ASP130 3.2 13.4 1.0
CD2 A:HIS146 3.4 14.8 1.0
OE2 A:GLU128 3.5 18.6 1.0
CB A:ASP130 3.6 12.6 1.0
OD2 A:ASP141 3.6 20.0 1.0
O A:HOH263 3.9 15.6 1.0
CA A:CA262 4.2 16.6 1.0
OG A:SER156 4.3 15.1 1.0
CB A:ASP141 4.3 18.9 1.0
OD2 A:ASP130 4.3 16.7 1.0
ND1 A:HIS146 4.4 14.7 1.0
CG A:HIS146 4.5 16.6 1.0
CG A:GLU128 4.5 13.0 1.0
CD1 A:TRP140 4.5 20.1 1.0
O A:ILE154 4.5 19.3 1.0
NE1 A:TRP140 4.5 18.8 1.0
O A:HOH267 4.5 23.4 1.0
CA A:ASP141 4.8 20.2 1.0
CD A:PRO142 4.8 20.5 1.0

Manganese binding site 2 out of 2 in 1q8v

Go back to Manganese Binding Sites List in 1q8v
Manganese binding site 2 out of 2 in the Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Pterocarpus Angolensis Lectin (Pal) in Complex with the Trimannoside [Man(ALPHA1-3)]Man(ALPHA1-6)Man within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn261

b:15.2
occ:1.00
OD1 B:ASP141 2.2 14.9 1.0
OE1 B:GLU128 2.2 12.4 1.0
O B:HOH1265 2.2 13.9 1.0
OD2 B:ASP130 2.2 12.5 1.0
O B:HOH1266 2.3 14.0 1.0
NE2 B:HIS146 2.3 14.6 1.0
CG B:ASP141 3.2 16.0 1.0
CE1 B:HIS146 3.2 13.3 1.0
CG B:ASP130 3.2 16.5 1.0
CD B:GLU128 3.2 14.3 1.0
CD2 B:HIS146 3.4 12.3 1.0
CB B:ASP130 3.5 18.0 1.0
OE2 B:GLU128 3.6 13.1 1.0
OD2 B:ASP141 3.6 18.8 1.0
O B:HOH1264 3.8 15.2 1.0
CA B:CA1262 4.2 15.2 1.0
OG B:SER156 4.3 15.1 1.0
CB B:ASP141 4.3 14.7 1.0
OD1 B:ASP130 4.3 12.7 1.0
ND1 B:HIS146 4.4 13.2 1.0
CG B:HIS146 4.5 14.0 1.0
O B:HOH1267 4.5 22.4 1.0
CD1 B:TRP140 4.5 19.7 1.0
NE1 B:TRP140 4.6 19.4 1.0
CG B:GLU128 4.6 14.4 1.0
O B:ILE154 4.6 18.4 1.0
CA B:ASP141 4.8 18.1 1.0
CD B:PRO142 4.9 22.2 1.0

Reference:

R.Loris, I.Van Walle, H.De Greve, S.Beeckmans, F.Deboeck, L.Wyns, J.Bouckaert. Structural Basis of Oligomannose Recognition By the Pterocarpus Angolensis Seed Lectin J.Mol.Biol. V. 335 1227 2004.
ISSN: ISSN 0022-2836
PubMed: 14729339
DOI: 10.1016/J.JMB.2003.11.043
Page generated: Tue Dec 15 03:54:35 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy